Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.13.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87376	0.551
27DAP/17DAP	1.1266	0.859
39DAP/27DAP	1.15667	0.99
41DAP/39DAP	1.5145	0.685
42DAP/41DAP	1.13201	0.992
43DAP/42DAP	0.95354	0.801
47DAP/43DAP	0.92882	0.729
52DAP/47DAP	1.02386	0.946
57DAP/52DAP	0.84661	0.879

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90779	0.033
17DAP/reference	0.95716	0.278
27DAP/reference	0.97955	0.581
39DAP/reference	1.01449	0.557
41DAP/reference	0.99792	1
42DAP/reference	0.91087	0.007
43DAP/reference	0.9761	0.631
47DAP/reference	1.00313	0.764
52DAP/reference	1.14586	0.043
57DAP/reference	0.98039	0.456

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82156	0.062
27DAP/17DAP	1.26911	0.245
39DAP/27DAP	1.17255	0.429
41DAP/39DAP	1.07085	0.896
42DAP/41DAP	0.81368	0.208
43DAP/42DAP	0.93554	0.558
47DAP/43DAP	1.09418	0.969
52DAP/47DAP	1.19118	0.512
57DAP/52DAP	1.23883	0.372
57DAP/7DAP	1.46838	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74765	0.073
17DAP/reference	0.97034	0.447
27DAP/reference	0.90902	0.031
39DAP/reference	0.80205	0.025
41DAP/reference	0.8149	0.062
42DAP/reference	0.75809	0.021
43DAP/reference	1.15682	0.603
47DAP/reference	0.84821	0.168
52DAP/reference	0.82677	0.097
57DAP/reference	0.99951	0.648

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00267	0.93
17DAP/reference	0.98873	0.659
27DAP/reference	0.94452	0.393
39DAP/reference	0.9248	0.202
41DAP/reference	0.8889	0.057
42DAP/reference	0.95564	0.392
43DAP/reference	1.10532	0.697
47DAP/reference	0.86327	0.058
52DAP/reference	0.98586	0.537
57DAP/reference	1.01978	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86142	0.087
17DAP/reference	0.99405	0.792
27DAP/reference	0.94949	0.27
39DAP/reference	0.97696	0.464
41DAP/reference	0.9945	0.754
42DAP/reference	0.87363	0.032
43DAP/reference	0.77504	0.051
47DAP/reference	0.99756	0.708
52DAP/reference	1.05513	0.928
57DAP/reference	1.34318	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09543	0.966
26DAP/20DAP	0.80036	0.317
34DAP/26DAP	1.19714	1
51DAP/34DAP	0.95782	0.779
52DAP/51DAP	1.14109	0.808
53DAP/52DAP	0.90067	0.254
55DAP/53DAP	1.20338	0.629
57DAP/55DAP	1.18187	0.666
62DAP/57DAP	1.10442	0.723
68DAP/62DAP	0.86518	0.144
68DAP/14DAP	0.95516	1

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91521	0.378

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.26862	0.666
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.49281	0.051
Ripe Pepper/Ripe Tomato	0.41026	0.224
Mature Eggplant/Ripe Tomato	14.6367	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94741	0.961
1-1-2/M82	1.28195	1
12-2/M82	1.63342
12-4/M82	1.3458
1-3/M82	0.76896
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.89086	1
3-2/M82	N/A	N/A
4-1-1/M82	0.80432
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.49816
5-3/M82	0.99494	1
6-2/M82	0.6858	0.481
6-3/M82	1.24944
7-1/M82	1.02635
7-2/M82	0.67368
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85524
IL2-6/WTpooled	1.21477	0.419
IL7-5/WTpooled	0.99931	1
IL7-3/WTpooled	0.97462	1
IL12-4/WTpooled	0.83854	0.566
IL1-4/WTpooled	0.9235	0.834
WT/WTpooled	0.95369	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	0.90588	0.75

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08891	0.875
DC3000/delta hrp 6h	0.98529	0.95
DC3000/delta hrp 12h	0.9909	1
DC3000/delta hrp 24h	0.92486	0.323

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.21283	1
Exp 36h	1.10977	0.693
Exp 60h	1.33735	0.283

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.01833	1
Var 0h	0.4874	0.174
Var 12h I row2-row1	1.11557	0.348
Var 12h NI row2-row1	0.96739	0.906
Var 36h I row2-row1	0.99883	1
Var 36h NI row2-row1	0.84511	0.645
Var 60h I row2-row1	0.89769	0.285
Var 60h NI row2-row1	0.90295	1
Time course 0hI-0hNI	1.01449	1
Time course 12hI-12hNI	0.87124	0.122
Time course 36hI-36hNI	0.78384	0.031
Time course 60hI-60hNI	2.24807	0.008

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.20433	0.431
transgenic ySAMdc/azygous control (breaker)	0.66021	0.142
transgenic ySAMdc/azygous control (red)	0.86907	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04865	0.148

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.64137	0.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.70094	1
Manapal/WT (break)	1.0398	1
Manapal/WT (red)	N/A	N/A